Hi Jerven,
In speaking to development the Virtuoso "file_io..." function were written for
use with regular files and thus do not support named pipes. Do you have a
specific need for this support for data loads ?
Best Regards
Hugh Williams
Professional Services
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On 17 Jan 2014, at 14:08, Jerven Bolleman <jerven.bolle...@isb-sib.ch> wrote:
> Hi Hugh,
>
> The virtuoso server log does not show any error messages.
> The version is Version 7.0.1-dev.3207-pthreads as of Jan 16 2014
>
> If I use file_open instead of file_to_string_output I get a error
> message (FA25 Seek error in file , which makes sense for a pipe).
>
> i.e. DEBUG: Using script:DB.DBA.TTLP(file_open
> ('/tmp/virtuosoJavaCommunicationFifo7003142399157620167.ttl'),
> 'http://beta.sparql.uniprot.org/locations/','http://beta.sparql.uniprot.org/locations/')
> 2014-01-17 13:29:35 +0000
> org.expasy.sesame.virtuoso.VirtuosoBulkStatementTransaction
> ERROR:
> virtuoso.jdbc4.VirtuosoException: FA025: Seek error in file
> '/tmp/virtuosoJavaCommunicationFifo7003142399157620167.ttl', error :
>
> Then in my code writing to the named pipe fails on the 87th triple just
> as in the case with file_to_string_output. (this seems to be very close
> to 4096 bytes written before failing).
>
> However, with file_to_string_output I see the same broken pipe from the
> java side. But nothing in the virtuoso.log. Just the normal start up
> logging. The process also fails on the 87th triple.
>
> Secondly as a second trial, I speed up the writing into the turtle file
> then the process is successful. e.g. cat in to a named pipe or less
> checks on the java side. This makes me think that the
> file_to_string_output method does not correctly check if the named pipe
> is finished or if it just has no bytes available at this time.
> If that is the case then it would be a bug, but someone would need to
> check on a code level if my idea is correct.
>
> Regards,
> Jerven
>
>
> On 17/01/14 02:42, Hugh Williams wrote:
>> Hi Jerven,
>>
>> What is the version of Virtuoso being used, please provide the output of
>> running:
>>
>> virtuoso-t -?
>>
>> What are the actual errors being reported on the server side, please
>> provide a copy or snippet of the virtuoso.log show these ?
>>
>> Are you able to provide a simple test case for recreation in-house ?
>>
>> Best Regards
>> Hugh Williams
>> Professional Services
>> OpenLink Software, Inc. // http://www.openlinksw.com/
>> Weblog -- http://www.openlinksw.com/blogs/
>> LinkedIn -- http://www.linkedin.com/company/openlink-software/
>> Twitter -- http://twitter.com/OpenLink
>> Google+ -- http://plus.google.com/100570109519069333827/
>> Facebook -- http://www.facebook.com/OpenLinkSoftware
>> Universal Data Access, Integration, and Management Technology Providers
>>
>> On 16 Jan 2014, at 16:44, Jerven Bolleman <jerven.bolle...@isb-sib.ch
>> <mailto:jerven.bolle...@isb-sib.ch>> wrote:
>>
>>> Hi Virtuoso Devs,
>>>
>>> I am trying to use file_to_string_output to read from a named pipe.
>>> However, this seems to break without log message from virtuoso
>>>
>>> e.g.
>>>
>>> DB.DBA.TTLP(file_to_string_output
>>> ('/tmp/virtuosoJavaCommunicationFifo7287643597025348653.ttl'),
>>> 'http://beta.sparql.uniprot.org/locations/','http://beta.sparql.uniprot.org/locations/')
>>>
>>> Which on the other side gives me Broken Pipe IOExceptions.
>>>
>>> Do you know if anyone else has tried this before or if this
>>> fundamentally will never work?
>>>
>>> The /tmp is in the DirsAllowed
>>>
>>> Regards,
>>> Jerven
>>>
>>> --
>>> -------------------------------------------------------------------
>>> Jerven Bolleman jerven.bolle...@isb-sib.ch
>>> <mailto:jerven.bolle...@isb-sib.ch>
>>> SIB Swiss Institute of Bioinformatics Tel: +41 (0)22 379 58 85
>>> CMU, rue Michel Servet 1 Fax: +41 (0)22 379 58 58
>>> 1211 Geneve 4,
>>> Switzerland www.isb-sib.ch <http://www.isb-sib.ch> - www.uniprot.org
>>> <http://www.uniprot.org>
>>> Follow us at https://twitter.com/#!/uniprot
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>>
>
> --
> -------------------------------------------------------------------
> Jerven Bolleman jerven.bolle...@isb-sib.ch
> SIB Swiss Institute of Bioinformatics Tel: +41 (0)22 379 58 85
> CMU, rue Michel Servet 1 Fax: +41 (0)22 379 58 58
> 1211 Geneve 4,
> Switzerland www.isb-sib.ch - www.uniprot.org
> Follow us at https://twitter.com/#!/uniprot
> -------------------------------------------------------------------
>
> ------------------------------------------------------------------------------
> CenturyLink Cloud: The Leader in Enterprise Cloud Services.
> Learn Why More Businesses Are Choosing CenturyLink Cloud For
> Critical Workloads, Development Environments & Everything In Between.
> Get a Quote or Start a Free Trial Today.
> http://pubads.g.doubleclick.net/gampad/clk?id=119420431&iu=/4140/ostg.clktrk
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